Files in Rsubread
Subread sequence alignment for R

.BBSoptions
CHANGELOG
DESCRIPTION
NAMESPACE
NEWS
R
R/RsubreadUsersGuide.R R/align.R R/atgcContent.R R/buildindex.R R/createAnnotationFile.R R/detectionCall.R R/detectionCallAnnotation.R R/exactSNP.R R/featureCounts.R R/findCommonVariants.R R/getInBuiltAnnotation.R R/processExons.R R/promoterRegions.R R/propmapped.R R/qualityScores.R R/removeDupReads.R R/repair.R R/sam2bed.R R/subjunc.R R/txUnique.R
build
build/vignette.rds
configure
inst
inst/CITATION
inst/annot
inst/annot/hg19_RefSeq_exon.txt
inst/annot/hg38_RefSeq_exon.txt
inst/annot/mm10_RefSeq_exon.txt
inst/annot/mm9_RefSeq_exon.txt
inst/doc
inst/doc/Rsubread.R
inst/doc/Rsubread.Rnw
inst/doc/Rsubread.pdf
inst/extdata
inst/extdata/reads.txt.gz
inst/extdata/reads1.txt.gz
inst/extdata/reads2.txt.gz
inst/extdata/reference.fa
inst/usersguide
inst/usersguide/SubreadUsersGuide.pdf
man
man/RsubreadUsersGuide.Rd man/align.Rd man/atgcContent.Rd man/buildindex.Rd man/createAnnotationFile.Rd man/detectionCall.Rd man/detectionCallAnnotation.Rd man/exactSNP.Rd man/featureCounts.Rd man/findCommonVariants.Rd man/getInBuiltAnnotation.Rd man/processExons.Rd man/promoterRegions.Rd man/propmapped.Rd man/qualityScores.Rd man/removeDupReads.Rd man/repair.Rd man/sam2bed.Rd man/txUnique.Rd
src
src/HelperFunctions.c
src/HelperFunctions.h
src/Makevars
src/Makevars.FreeBSD
src/Makevars.Linux
src/Makevars.MacOS
src/Makevars.SunOS
src/R_wrapper.c
src/SNPCalling.c
src/SNPCalling.h
src/aligner.c
src/atgcContent.c
src/build-sam-index.c
src/core-bigtable.c
src/core-bigtable.h
src/core-indel.c
src/core-indel.h
src/core-interface-aligner.c
src/core-interface-subjunc.c
src/core-junction.c
src/core-junction.h
src/core.c
src/core.h
src/detectionCall.c
src/detectionCallAnnotation.c
src/exon-algorithms.c
src/exon-algorithms.h
src/exon-align-indel.c
src/exon-align.c
src/fullscan.c
src/fusion-align.c
src/gene-algorithms.c
src/gene-algorithms.h
src/gene-value-index.c
src/gene-value-index.h
src/hashtable.c
src/hashtable.h
src/index-builder.c
src/input-files.c
src/input-files.h
src/interval_merge.c
src/interval_merge.h
src/long-hashtable.c
src/long-hashtable.h
src/mergeVCF.c
src/processExons.c
src/propmapped.c
src/qualityScores.c
src/read-repair.c
src/readSummary.c
src/removeDupReads.c
src/removeDupReads.h
src/sam2bed.c
src/sambam-file.c
src/sambam-file.h
src/seek-zlib.c
src/seek-zlib.h
src/sorted-hashtable.c
src/sorted-hashtable.h
src/sublog.c
src/sublog.h
src/subread.h
src/tx-unique.c
src/tx-unique.h
vignettes
vignettes/Rsubread.Rnw
Rsubread documentation built on July 16, 2017, 2:01 a.m.